A tile-based parallel viterbi algorithm for biological sequence alignment on GPU with CUDA

Proceedings of the 2010 IEEE International Symposium on Parallel and Distributed Processing, Workshops and Phd Forum, IPDPSW 2010

Volumn , Issue , 2010, Pages

  Du, Zhihui ^a   Yin, Zhaoming ^b   Bader, David A ^c  

^a TSINGHUA UNIVERSITY   (China)

^b PEKING UNIVERSITY   (China)

^c Georgia Institute of Technology   (United States)

Author keywords

GPGPU; Hidden Markov model; Viterbi algorithm

Indexed keywords

BALANCED LOADS; BIOLOGICAL SEQUENCE ALIGNMENT; COMPUTATIONAL KERNELS; COMPUTING POWER; COMPUTING UNITS; DATA TRANSMISSION; GPGPU; PARALLEL METHOD; SEQUENCE ALIGNMENT PROBLEM; SEQUENCE ALIGNMENTS; SMITH-WATERMAN ALGORITHM; SPEED-UPS;

ALIGNMENT; DISTRIBUTED PARAMETER NETWORKS; HIDDEN MARKOV MODELS; MATHEMATICAL MODELS; PARALLEL ALGORITHMS; PROGRAM PROCESSORS; WAVEFRONTS;

VITERBI ALGORITHM;

EID: 77954071479     PISSN: None     EISSN: None     Source Type: Conference Proceeding    
DOI: 10.1109/IPDPSW.2010.5470903     Document Type: Conference Paper

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